BtaINT0042283 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51889112-51889946:+
Coord C1 exon
chr22:51889112-51889309
Coord A exon
chr22:51889310-51889619
Coord C2 exon
chr22:51889620-51889946
Length
310 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGA
5' ss Score
10.03
3' ss Seq
ACCCCGCCTGCCCTGCCCAGGTG
3' ss Score
8.81
Exon sequences
Seq C1 exon
ACCCCTGCTCGCTTCCACTGGACGAGGGTTCCTGCAGTGCCTACACCCTGCGCTGGTATCATCGGGCTGGGGCGGGGGGCACGAAGGCCTGTCACCCCTTCGTCTACGGTGGCTGCGGAGGGAATGCCAACCGTTTTGGGACCCGGGAGGCCTGTGAGCACCGCTGCCTGCCCCAGGCGGCCCACAGTCAAGGGACAG
Seq A exon
GTACGAGCGTACCTCCATTCCAGTAGGGGCCTGCCCAGATTATGTCCAGAGTCGGGATCCGGGGTCAGAAGCTGCCCCCCCTCCCCAGACTGGGGGACCTGGGACAGACCCCGCCTCAGACCAAAGAGCTGATAGAGAAGCCTGGCTCTGGGTGGAGTCCCCAGTACGGTACCCCTCAGTGCTCCCTCCCTTAAAGACCTGAGTACGGACCCCTTTCTGTGGGCAGAGCCCCCACACCCACTGTGCCCCCGGCTCCCCCGTCCTCTGTGGCCCTTGCGTTAGACGGCTGAACCCCGCCTGCCCTGCCCAG
Seq C2 exon
GTGCTGCCCGGAGCTGAGGTCCAGTCCAGCATCCCCTGGAGGAGTCGGTGTCTCGGCTGGACCCTGCCGTCCCCCCCACTTGGTGCTAGAGGCCTGTCTGCACGTGAGCGTGCGTGAGCGCGTCCGTTATTTCAGTGACTTGTTCCACGGGTCTCGCCTTCCCCTCAGTGGACAGACCCCCATTGTGGCTGCTGCCTCCCTGGCTGATGACTCAGTGTTGGGGAGGCTTTGGGCAGTGAGCGGAAGTGACTGAATCCAACCCGCCCCTTGCCCCACGCTAGTGATGACATGGTGCTGATTCTGGGGGGTCATTAAAGCTGCTGTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:117
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.060 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0001418=Kunitz_BPTI=WD(100=83.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGGAATGCCAACCGTTTT
R:
GCGGGTTGGATTCAGTCACTT
Band lengths:
346-656
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]